Variant report

Variant	rs35711802
Chromosome Location	chr3:141236524-141236525
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:141205718..141209155-chr3:141236007..141238625,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000155903	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11711375	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11916906	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11917587	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13062809	0.82[EUR][1000 genomes]
rs13069717	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1366042	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1493209	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1582875	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1863867	0.85[ASN][1000 genomes]
rs2042864	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2172471	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2312193	0.87[EUR][1000 genomes]
rs2639998	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs295320	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs295323	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3806646	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3821710	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3821712	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6440013	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6440015	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6763498	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6767158	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6776003	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6785874	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6795168	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6800122	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6808837	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7632308	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7643837	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9289631	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9813177	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1006237	chr3:141227525-141300722	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1014365	chr3:141235379-141282615	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs35711802	RASA2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141207000-141255000	Weak transcription	Aorta	Aorta
2	chr3:141210400-141248000	Weak transcription	NHLF	lung
3	chr3:141216000-141239600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr3:141217800-141258400	Weak transcription	Psoas Muscle	Psoas
5	chr3:141226600-141254400	Weak transcription	Brain Cingulate Gyrus	brain
6	chr3:141227400-141242800	Weak transcription	Ovary	ovary
7	chr3:141228400-141246600	Strong transcription	Dnd41	blood
8	chr3:141229400-141267400	Weak transcription	Fetal Heart	heart
9	chr3:141230000-141259800	Weak transcription	Small Intestine	intestine
10	chr3:141230400-141243000	Weak transcription	Spleen	Spleen
11	chr3:141231000-141243000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr3:141231200-141237000	Strong transcription	Primary T cells fromperipheralblood	blood
13	chr3:141231200-141240200	Strong transcription	Primary B cells from peripheral blood	blood
14	chr3:141231200-141240800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr3:141231200-141245000	Strong transcription	Fetal Thymus	thymus
16	chr3:141231600-141254400	Weak transcription	Fetal Kidney	kidney
17	chr3:141231600-141263600	Weak transcription	Fetal Brain Male	brain
18	chr3:141231800-141242600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr3:141232000-141241800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr3:141232200-141237800	Strong transcription	Primary T helper cells fromperipheralblood	blood
21	chr3:141232200-141245600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
22	chr3:141232200-141254400	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr3:141232400-141240000	Strong transcription	HUES64 Cell Line	embryonic stem cell
24	chr3:141232600-141239600	Strong transcription	Osteobl	bone
25	chr3:141232600-141244400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr3:141232800-141236600	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
27	chr3:141232800-141236600	Strong transcription	Liver	Liver
28	chr3:141232800-141237200	Strong transcription	Duodenum Smooth Muscle	Duodenum
29	chr3:141232800-141239600	Strong transcription	Primary T cells from cord blood	blood
30	chr3:141232800-141240000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr3:141233000-141236600	Strong transcription	Adipose Nuclei	Adipose
32	chr3:141233200-141237000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr3:141233200-141237200	Strong transcription	Rectal Mucosa Donor 29	rectum
34	chr3:141233400-141237400	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr3:141233400-141237600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr3:141234000-141254400	Weak transcription	Right Ventricle	heart
37	chr3:141234200-141237400	Strong transcription	Fetal Muscle Leg	muscle
38	chr3:141234600-141237800	Strong transcription	Primary T helper cells PMA-I stimulated	--
39	chr3:141235000-141236600	Strong transcription	Muscle Satellite Cultured Cells	--
40	chr3:141235000-141237000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
41	chr3:141235000-141237000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr3:141235200-141236600	Strong transcription	H1 Cell Line	embryonic stem cell
43	chr3:141235200-141236600	Strong transcription	HUES6 Cell Line	embryonic stem cell
44	chr3:141235200-141236600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr3:141235200-141236600	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
46	chr3:141235200-141236600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr3:141235200-141236600	Strong transcription	Rectal Mucosa Donor 31	rectum
48	chr3:141235200-141236600	Strong transcription	Stomach Smooth Muscle	stomach
49	chr3:141235200-141236600	ZNF genes & repeats	GM12878-XiMat	blood
50	chr3:141235200-141237000	Strong transcription	Brain Anterior Caudate	brain

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